mRNA_E-siliculosus-1a_F_contig1403.2389.1 (mRNA) Ectocarpus siliculosus Ec863f_EcPH12_90f female

You are viewing an mRNA, more information available on the corresponding polypeptide page

Overview
NamemRNA_E-siliculosus-1a_F_contig1403.2389.1
Unique NamemRNA_E-siliculosus-1a_F_contig1403.2389.1
TypemRNA
OrganismEctocarpus siliculosus Ec863f_EcPH12_90f female (Ectocarpus siliculosus Ec863f_EcPH12_90f female)
Homology
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: D7FP28_ECTSI (DNA-directed RNA polymerase n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7FP28_ECTSI)

HSP 1 Score: 205 bits (521), Expect = 4.430e-67
Identity = 96/98 (97.96%), Postives = 96/98 (97.96%), Query Frame = 1 
Query:    1 MCPLVTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKVGKVKVYQLDSQPF 294
            MCPLVTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKVGKVKV  LDSQPF
Sbjct:    1 MCPLVTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKVGKVKVCPLDSQPF 98
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: A0A6H5JAF8_9PHAE (DNA-directed RNA polymerase n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5JAF8_9PHAE)

HSP 1 Score: 173 bits (439), Expect = 1.500e-48
Identity = 80/81 (98.77%), Postives = 81/81 (100.00%), Query Frame = 1 
Query:   13 VTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            +TPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV
Sbjct:  153 ITPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 233
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: A0A7S3DT07_9STRA (DNA-directed RNA polymerase (Fragment) n=1 Tax=Amphiprora paludosa TaxID=265537 RepID=A0A7S3DT07_9STRA)

HSP 1 Score: 140 bits (352), Expect = 1.540e-38
Identity = 63/81 (77.78%), Postives = 73/81 (90.12%), Query Frame = 1 
Query:   13 VTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            +TPFQCRLRDC+YSAP++VNVRYTRGRQIV K N+ IGR+P+ML S  CVLTGK+E ELA +KECPYDPGGYFV+KGVEKV
Sbjct:   52 ITPFQCRLRDCSYSAPIYVNVRYTRGRQIVVKRNVMIGRMPIMLRSQNCVLTGKTEDELAALKECPYDPGGYFVIKGVEKV 132
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: I2CNY0_NANGC (DNA-directed RNA polymerase subunit beta n=3 Tax=Monodopsidaceae TaxID=425072 RepID=I2CNY0_NANGC)

HSP 1 Score: 143 bits (360), Expect = 1.470e-37
Identity = 64/81 (79.01%), Postives = 73/81 (90.12%), Query Frame = 1 
Query:   13 VTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            VTPFQCRLRDCTYSAP+ V+VRYTRGRQIV K  + IGRIP+ML SCKC+L G+SEAELA+ KECPYDPGGYF+VKGVE+V
Sbjct:  121 VTPFQCRLRDCTYSAPITVDVRYTRGRQIVVKRGVMIGRIPIMLRSCKCILAGRSEAELAEKKECPYDPGGYFIVKGVERV 201
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: A0A482SHA3_9ARCH (DNA-directed RNA polymerase n=1 Tax=archaeon TaxID=1906665 RepID=A0A482SHA3_9ARCH)

HSP 1 Score: 131 bits (329), Expect = 2.510e-37
Identity = 62/81 (76.54%), Postives = 67/81 (82.72%), Query Frame = 1 
Query:   13 VTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            VTPFQCRLRDCTYSAPL+VNV+YTR +QIV K NI IGRIP+ML S KCVL  KS  EL  +KEC YDPGGYFVVKG EKV
Sbjct:   23 VTPFQCRLRDCTYSAPLYVNVKYTRQKQIVVKNNIQIGRIPIMLRSEKCVLNNKSSEELGALKECEYDPGGYFVVKGTEKV 103
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: A0A7S2XTK8_9STRA (DNA-directed RNA polymerase (Fragment) n=1 Tax=Attheya septentrionalis TaxID=420275 RepID=A0A7S2XTK8_9STRA)

HSP 1 Score: 134 bits (338), Expect = 5.020e-37
Identity = 60/80 (75.00%), Postives = 71/80 (88.75%), Query Frame = 1 
Query:   16 TPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            TPFQCRLRDCTYSAP++VNVRYTRGRQIV K  + +GR+P+ML S KC+L+ K+E +LA MKECPYDPGGYFV+KGVEKV
Sbjct:  140 TPFQCRLRDCTYSAPIYVNVRYTRGRQIVIKKKVLVGRMPIMLRSSKCLLSHKTERQLAAMKECPYDPGGYFVIKGVEKV 219
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: A0A7S2EFY4_TRICV (DNA-directed RNA polymerase (Fragment) n=1 Tax=Trieres chinensis TaxID=1514140 RepID=A0A7S2EFY4_TRICV)

HSP 1 Score: 130 bits (328), Expect = 1.120e-36
Identity = 56/80 (70.00%), Postives = 72/80 (90.00%), Query Frame = 1 
Query:   16 TPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            +PFQCRLRDCTYSAP++V+VRYTRGRQIV K  + +GR+P+ML S KC+L+GK+E +LA M+ECP+DPGGYF++KGVEKV
Sbjct:   51 SPFQCRLRDCTYSAPIYVDVRYTRGRQIVVKKKVVVGRMPIMLRSSKCMLSGKTERQLARMRECPHDPGGYFIIKGVEKV 130
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: A0A1E7EUM7_9STRA (DNA-directed RNA polymerase subunit beta n=1 Tax=Fragilariopsis cylindrus CCMP1102 TaxID=635003 RepID=A0A1E7EUM7_9STRA)

HSP 1 Score: 139 bits (349), Expect = 4.480e-36
Identity = 63/80 (78.75%), Postives = 71/80 (88.75%), Query Frame = 1 
Query:   16 TPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            TPFQCRLRDCTYSAP++VNVRYTRGRQIV K  + IG++P+ML S KC+L GKSE +LA MKECPYDPGGYFVVKGVEKV
Sbjct:  162 TPFQCRLRDCTYSAPIYVNVRYTRGRQIVVKRKVKIGQMPIMLRSQKCILNGKSEQDLARMKECPYDPGGYFVVKGVEKV 241
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: B8BQM2_THAPS (DNA-directed RNA polymerase subunit beta n=1 Tax=Thalassiosira pseudonana TaxID=35128 RepID=B8BQM2_THAPS)

HSP 1 Score: 138 bits (347), Expect = 8.300e-36
Identity = 63/80 (78.75%), Postives = 70/80 (87.50%), Query Frame = 1 
Query:   16 TPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            TPFQCRLRDCTYSAP++VNVRYTRGRQIV K  + IGR+P+ML S KC+L  KSE ELA MKECPYDPGGYFV+KGVEKV
Sbjct:   61 TPFQCRLRDCTYSAPIYVNVRYTRGRQIVVKKKVMIGRMPIMLRSSKCLLRDKSERELAQMKECPYDPGGYFVIKGVEKV 140
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BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Match: A0A7S4QYU8_9STRA (DNA-directed RNA polymerase subunit beta n=2 Tax=Ditylum brightwellii TaxID=49249 RepID=A0A7S4QYU8_9STRA)

HSP 1 Score: 135 bits (340), Expect = 7.350e-35
Identity = 62/80 (77.50%), Postives = 71/80 (88.75%), Query Frame = 1 
Query:   16 TPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLSCKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKV 255
            TPFQCRLRDCTYSAP++V+VRYTRGRQIV K  I IGR+P+ML S KC+LTGK+  +LA MKECP+DPGGYFVVKGVEKV
Sbjct:  295 TPFQCRLRDCTYSAPIYVDVRYTRGRQIVVKRKIMIGRLPIMLRSSKCLLTGKTHRQLARMKECPHDPGGYFVVKGVEKV 374
The following BLAST results are available for this feature:
BLAST of mRNA_E-siliculosus-1a_F_contig1403.2389.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 of Ectocarpus siliculosus 1a female vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7FP28_ECTSI4.430e-6797.96DNA-directed RNA polymerase n=1 Tax=Ectocarpus sil... [more]
A0A6H5JAF8_9PHAE1.500e-4898.77DNA-directed RNA polymerase n=1 Tax=Ectocarpus sp.... [more]
A0A7S3DT07_9STRA1.540e-3877.78DNA-directed RNA polymerase (Fragment) n=1 Tax=Amp... [more]
I2CNY0_NANGC1.470e-3779.01DNA-directed RNA polymerase subunit beta n=3 Tax=M... [more]
A0A482SHA3_9ARCH2.510e-3776.54DNA-directed RNA polymerase n=1 Tax=archaeon TaxID... [more]
A0A7S2XTK8_9STRA5.020e-3775.00DNA-directed RNA polymerase (Fragment) n=1 Tax=Att... [more]
A0A7S2EFY4_TRICV1.120e-3670.00DNA-directed RNA polymerase (Fragment) n=1 Tax=Tri... [more]
A0A1E7EUM7_9STRA4.480e-3678.75DNA-directed RNA polymerase subunit beta n=1 Tax=F... [more]
B8BQM2_THAPS8.300e-3678.75DNA-directed RNA polymerase subunit beta n=1 Tax=T... [more]
A0A7S4QYU8_9STRA7.350e-3577.50DNA-directed RNA polymerase subunit beta n=2 Tax=D... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
E-siliculosus-1a_F_contig1403contigE-siliculosus-1a_F_contig1403:29329..30061 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 of Ectocarpus siliculosus 1a female vs UniRef902022-09-19
OGS1.0 of Ectocarpus siliculosus Ec863f_EcPH12_90f female2021-02-24
Properties
Property NameValue
Start1
Stop1
Cds size297
Model size297
Exons2
Ec32 orthologEc-00_003160.1
Ec32 ortholog descriptionDNA-directed RNA polymerase, subunit 2
Hectar predicted targeting categoryother localisation
BRITEbr01611,ko00000,ko00001,ko00002,ko01000,ko03021,ko03400
Best eggNOG OGNA|NA|NA
Best tax levelEukaryota
COG Functional cat.K
EC2.7.7.6
EggNOG OGsCOG0085@1,KOG0215@2759
EggNOG free text desc.DNA-directed 5'-3' RNA polymerase activity
GOsGO:0000428,GO:0001817,GO:0001819,GO:0002682,GO:0002684,GO:0003674,GO:0003824,GO:0003899,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005666,GO:0005730,GO:0005736,GO:0005737,GO:0005829,GO:0006139,GO:0006351,GO:0006360,GO:0006383,GO:0006399,GO:0006725,GO:0006807,GO:0007275,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009304,GO:0009553,GO:0009561,GO:0009987,GO:0010467,GO:0016070,GO:0016740,GO:0016772,GO:0016779,GO:0018130,GO:0019438,GO:0030880,GO:0031347,GO:0031349,GO:0031974,GO:0031981,GO:0032479,GO:0032481,GO:0032501,GO:0032502,GO:0032648,GO:0032728,GO:0032774,GO:0032991,GO:0034062,GO:0034641,GO:0034645,GO:0034654,GO:0034660,GO:0042797,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044451,GO:0044452,GO:0044464,GO:0045088,GO:0045089,GO:0046483,GO:0048229,GO:0048518,GO:0048583,GO:0048584,GO:0048856,GO:0050776,GO:0050778,GO:0050789,GO:0051239,GO:0051240,GO:0055029,GO:0061695,GO:0065007,GO:0070013,GO:0071704,GO:0080134,GO:0090304,GO:0097659,GO:0097747,GO:0098781,GO:0140098,GO:1901360,GO:1901362,GO:1901576,GO:1902494,GO:1990234
KEGG ModuleM00180,M00181
KEGG Pathwayko00230,ko00240,ko01100,ko03020,ko04623,ko05016,ko05169,map00230,map00240,map01100,map03020,map04623,map05016,map05169
KEGG ReactionR00435,R00441,R00442,R00443
KEGG koko:K03010,ko:K03021
KEGG rclassRC02795
Preferred namePOLR3B
Seed eggNOG ortholog2880.D7FP28
Seed ortholog evalue1e-50
Seed ortholog score205.7
Taxonomic scopeEukaryota
Relationships

The following CDS feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesTypePosition
1622927919.1911354-CDS-E-siliculosus-1a_F_contig1403:29328..294771622927919.1911354-CDS-E-siliculosus-1a_F_contig1403:29328..29477Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig1403 29329..29477 +
1696318736.8369102-CDS-E-siliculosus-1a_F_contig1403:29328..294771696318736.8369102-CDS-E-siliculosus-1a_F_contig1403:29328..29477Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig1403 29329..29477 +
1622927919.2060933-CDS-E-siliculosus-1a_F_contig1403:29913..300611622927919.2060933-CDS-E-siliculosus-1a_F_contig1403:29913..30061Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig1403 29914..30061 +
1696318736.847776-CDS-E-siliculosus-1a_F_contig1403:29913..300611696318736.847776-CDS-E-siliculosus-1a_F_contig1403:29913..30061Ectocarpus siliculosus Ec863f_EcPH12_90f femaleCDSE-siliculosus-1a_F_contig1403 29914..30061 +


The following polypeptide feature(s) derives from this mRNA:

Feature NameUnique NameSpeciesTypePosition
mRNA_E-siliculosus-1a_F_contig1403.2389.1prot_E-siliculosus-1a_F_contig1403.2389.1Ectocarpus siliculosus Ec863f_EcPH12_90f femalepolypeptideE-siliculosus-1a_F_contig1403 29329..30061 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_E-siliculosus-1a_F_contig1403.2389.1

>prot_E-siliculosus-1a_F_contig1403.2389.1 ID=prot_E-siliculosus-1a_F_contig1403.2389.1|Name=mRNA_E-siliculosus-1a_F_contig1403.2389.1|organism=Ectocarpus siliculosus Ec863f_EcPH12_90f female|type=polypeptide|length=99bp
MCPLVTPFQCRLRDCTYSAPLWVNVRYTRGRQIVNKTNINIGRIPVMLLS
CKCVLTGKSEAELADMKECPYDPGGYFVVKGVEKVGKVKVYQLDSQPF*
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mRNA from alignment at E-siliculosus-1a_F_contig1403:29329..30061+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_E-siliculosus-1a_F_contig1403.2389.1 ID=mRNA_E-siliculosus-1a_F_contig1403.2389.1|Name=mRNA_E-siliculosus-1a_F_contig1403.2389.1|organism=Ectocarpus siliculosus Ec863f_EcPH12_90f female|type=mRNA|length=733bp|location=Sequence derived from alignment at E-siliculosus-1a_F_contig1403:29329..30061+ (Ectocarpus siliculosus Ec863f_EcPH12_90f female)
ATGTGCCCCCTAGTCACGCCGTTCCAATGTCGACTACGCGATTGCACGTA
CTCCGCTCCCCTGTGGGTGAACGTGCGGTACACGCGAGGTCGCCAAATCG
TCAACAAGACCAACATCAACATCGGCCGCATCCCAGTCATGCTGCTCAGG
TTCGCACCTCACATGCTTTCGCGCTATGTCCCAGTAGGCGACGAATAACA
TGTTGCTTTCTCATGGTGGTTGATTCAGGCCCCATTTTGTCTGCGTGCAT
GATTCCATGTGTGTGTTGGCGTTGTTGTTGGTGTTGTGATGTTTTAATCG
ATGCCGTAGGCAGCTAGCTGCAAGGAGTTTGTTCAGCCGGTGAGAGGGTG
AGCTCGACCGTCGCGCATTTCCTGCTGCCATCTCTGTGCATTGATGTGCG
GAGCGTTTTGCGTGCGTCGTGTACGCTCCCTGAGCAACTACGTCGTGGTA
CTGTTTAGCTATTGGATTGTGCCTAGTCCCGTAGGCACGAAGGATTCGTT
TTTTGGATCAGCCAGCGCGCCTCTAGAATCACCAATGGGTTGCTTATGTG
CTCTCTCTCTTTCTCTGGCTTCTTGGGGGACACAGCTGCAAGTGCGTCCT
GACGGGTAAGAGCGAGGCGGAGCTGGCGGATATGAAGGAGTGCCCATACG
ATCCCGGAGGCTACTTCGTCGTCAAGGGAGTGGAAAAGGTGGGCAAGGTT
AAGGTTTATCAGCTTGATTCACAACCTTTTTGA
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Coding sequence (CDS) from alignment at E-siliculosus-1a_F_contig1403:29329..30061+

>mRNA_E-siliculosus-1a_F_contig1403.2389.1 ID=mRNA_E-siliculosus-1a_F_contig1403.2389.1|Name=mRNA_E-siliculosus-1a_F_contig1403.2389.1|organism=Ectocarpus siliculosus Ec863f_EcPH12_90f female|type=CDS|length=594bp|location=Sequence derived from alignment at E-siliculosus-1a_F_contig1403:29329..30061+ (Ectocarpus siliculosus Ec863f_EcPH12_90f female)
ATGTGCCCCCTAGTCACGCCGTTCCAATGTCGACTACGCGATTGCACGTA
CTCCGCTCCCCTGTGGGTGAACGTGCGGTACACGCGAGGTCGCCAAATCG
TCAACAAGACCAACATCAACATCGGCCGCATCCCAGTCATGCTGCTCAGA
TGTGCCCCCTAGTCACGCCGTTCCAATGTCGACTACGCGATTGCACGTAC
TCCGCTCCCCTGTGGGTGAACGTGCGGTACACGCGAGGTCGCCAAATCGT
CAACAAGACCAACATCAACATCGGCCGCATCCCAGTCATGCTGCTCAGCT
GCAAGTGCGTCCTGACGGGTAAGAGCGAGGCGGAGCTGGCGGATATGAAG
GAGTGCCCATACGATCCCGGAGGCTACTTCGTCGTCAAGGGAGTGGAAAA
GGTGGGCAAGGTTAAGGTTTATCAGCTTGATTCACAACCTTTTTGACTGC
AAGTGCGTCCTGACGGGTAAGAGCGAGGCGGAGCTGGCGGATATGAAGGA
GTGCCCATACGATCCCGGAGGCTACTTCGTCGTCAAGGGAGTGGAAAAGG
TGGGCAAGGTTAAGGTTTATCAGCTTGATTCACAACCTTTTTGA
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